Comparative genomics and phylogeny of the IncI1 plasmids: A common plasmid type among porcine enterotoxigenic Escherichia coli
Tài liệu tham khảo
Altschul, 1990, Basic local alignment search tool, J. Mol. Biol., 215, 403, 10.1016/S0022-2836(05)80360-2
Brzuszkiewicz, E., et al., 2011. Genome sequence analysis of two isolates from the recent Escherichia coli outbreak in Germany reveal the emergence of a new pathotype: Entero-Aggregative-Hemorrhagic Escherichia coli (EAHEC). Arch. Microbiol. (Epub ahead of print).
Bortolaia, 2010, High diversity of extended-spectrum beta-lactamases in Escherichia coli isolates from Italian broiler flocks, Antimicrob. Agents Chemother., 54, 1623, 10.1128/AAC.01361-09
Bradley, 1985, Transfer systems of K88 and K99 plasmids, Plasmid, 13, 118, 10.1016/0147-619X(85)90064-2
Call, 2010, blaCMY-2-positive IncA/C plasmids from Escherichia coli and Salmonella enterica are a distinct component of a larger lineage of plasmids, Antimicrob. Agents Chemother., 54, 590, 10.1128/AAC.00055-09
Cascales, 2007, Colicin biology, Microbiol. Mol. Biol. Rev., 71, 158, 10.1128/MMBR.00036-06
Cloeckaert, 2007, Dissemination of an extended-spectrum-beta-lactamase blaTEM-52 gene-carrying IncI1 plasmid in various Salmonella enterica serovars isolated from poultry and humans in Belgium and France between 2001 and 2005, Antimicrob. Agents Chemother., 51, 1872, 10.1128/AAC.01514-06
Cloeckaert, 2010, IncI1 plasmid carrying extended-spectrum-beta-lactamase gene blaCTX-M-1 in Salmonella enterica isolates from poultry and humans in France, 2003 to 2008, Antimicrob. Agents Chemother., 54, 4484, 10.1128/AAC.00460-10
Crossman, 2010, A commensal gone bad: complete genome sequence of the prototypical enterotoxigenic Escherichia coli strain H10407, J. Bacteriol., 192, 5822, 10.1128/JB.00710-10
Darling, 2004, Mauve: multiple alignment of conserved genomic sequence with rearrangements, Genome Res., 14, 1394, 10.1101/gr.2289704
Delver, 1991, Nucleotide sequence of the gene (ard) encoding the antirestriction protein of plasmid ColIb-P9, J. Bacteriol., 173, 5887, 10.1128/jb.173.18.5887-5892.1991
Dierikx, 2010, Increased detection of extended spectrum beta-lactamase producing Salmonella enterica and Escherichia coli isolates from poultry, Vet. Microbiol., 145, 273, 10.1016/j.vetmic.2010.03.019
Diestra, 2009, Characterization of plasmids encoding blaESBL and surrounding genes in Spanish clinical isolates of Escherichia coli and Klebsiella pneumoniae, J. Antimicrob. Chemother., 63, 60, 10.1093/jac/dkn453
Dudley, 2006, An IncI1 plasmid contributes to the adherence of the atypical enteroaggregative Escherichia coli strain C1096 to cultured cells and abiotic surfaces, Infect. Immun., 74, 2102, 10.1128/IAI.74.4.2102-2114.2006
Folster, 2010, Identification and characterization of CTX-M-producing Shigella isolates in the United States, Antimicrob. Agents Chemother., 54, 2269, 10.1128/AAC.00039-10
Fricke, 2009, Comparative genomics of the IncA/C multidrug resistance plasmid family, J. Bacteriol., 191, 4750, 10.1128/JB.00189-09
Froehlich, 2005, The pCoo plasmid of enterotoxigenic Escherichia coli is a mosaic cointegrate, J. Bacteriol., 187, 6509, 10.1128/JB.187.18.6509-6516.2005
Garcia-Fernandez, 2008, Multilocus sequence typing of IncI1 plasmids carrying extended-spectrum beta-lactamases in Escherichia coli and Salmonella of human and animal origin, J. Antimicrob. Chemother., 61, 1229, 10.1093/jac/dkn131
Gyohda, 2000, Purification and characterization of the R64 shufflon-specific recombinase, J. Bacteriol., 182, 2787, 10.1128/JB.182.10.2787-2792.2000
Howland, 1989, The ssb gene of plasmid ColIb-P9, J. Bacteriol., 171, 2466, 10.1128/jb.171.5.2466-2473.1989
Hradecka, 2008, Characterization of Salmonella enterica serovar Typhimurium conjugative plasmids transferring resistance to antibiotics and their interaction with the virulence plasmid, J. Antimicrob. Chemother., 62, 938, 10.1093/jac/dkn286
Ishiwa, 2003, Thin pilus PilV adhesins of plasmid R64 recognize specific structures of the lipopolysaccharide molecules of recipient cells, J. Bacteriol., 185, 5192, 10.1128/JB.185.17.5192-5199.2003
Ishiwa, 2004, PilV adhesins of plasmid R64 thin pili specifically bind to the lipopolysaccharides of recipient cells, J. Mol. Biol., 343, 615, 10.1016/j.jmb.2004.08.059
Johnson, 2000, Extended virulence genotypes of Escherichia coli strains from patients with urosepsis in relation to phylogeny and host compromise, J. Infect. Dis., 181, 261, 10.1086/315217
Johnson, 2006, Complete DNA sequence, comparative genomics, and prevalence of an IncHI2 plasmid occurring among extraintestinal pathogenic Escherichia coli isolates, Antimicrob. Agents Chemother., 50, 3929, 10.1128/AAC.00569-06
Kim, 1997, The plasmid R64 thin pilus identified as a type IV pilus, J. Bacteriol., 179, 3594, 10.1128/jb.179.11.3594-3603.1997
Komano, 1990, Physical and genetic analyses of IncI2 plasmid R721: evidence for the presence of shufflon, Plasmid, 23, 248, 10.1016/0147-619X(90)90057-J
Komano, 1990, Transfer region of IncI1 plasmid R64 and role of shufflon in R64 transfer, J. Bacteriol., 172, 2230, 10.1128/jb.172.5.2230-2235.1990
Komano, 1987, Distribution of shufflon among IncI plasmids, J. Bacteriol., 169, 5317, 10.1128/jb.169.11.5317-5319.1987
Komano, 2000, The transfer region of IncI1 plasmid R64: similarities between R64 tra and legionella icm/dot genes, Mol. Microbiol., 35, 1348, 10.1046/j.1365-2958.2000.01769.x
Leverstein-van Hall, 2011, Dutch patients, retail chicken meat and poultry share the same ESBL genes, plasmids and strains, Clin. Microbiol. Infect., 17, 873, 10.1111/j.1469-0691.2011.03497.x
Literak, 2010, Antibiotic-resistant Escherichia coli bacteria, including strains with genes encoding the extended-spectrum beta-lactamase and QnrS, in waterbirds on the Baltic Sea Coast of Poland, Appl. Environ. Microbiol., 76, 8126, 10.1128/AEM.01446-10
Liu, 2007, Characterisation of plasmids encoding CTX-M-3 extended-spectrum beta-lactamase from Enterobacteriaceae isolated at a university hospital in Taiwan, Int. J. Antimicrob. Agents, 29, 440, 10.1016/j.ijantimicag.2006.11.013
Mainil, 1998, Virulence plasmids of enterotoxigenic Escherichia coli isolates from piglets, Vet. Microbiol., 62, 291, 10.1016/S0378-1135(98)00225-9
Marcade, 2009, Replicon typing of plasmids in Escherichia coli producing extended-spectrum beta-lactamases, J. Antimicrob. Chemother., 63, 67, 10.1093/jac/dkn428
Moissenet, 2010, Meningitis caused by Escherichia coli producing TEM-52 extended-spectrum beta-lactamase within an extensive outbreak in a neonatal ward: epidemiological investigation and characterization of the strain, J. Clin. Microbiol., 48, 2459, 10.1128/JCM.00529-10
Overbeek, 2005, The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes, Nucleic Acids Res., 33, 5691, 10.1093/nar/gki866
Rangnekar, 1983, Antimicrobial resistance and incompatibility groups of R plasmids in Salmonella typhimurium isolated from human sources in Bombay from 1978 to 1980, Antimicrob. Agents Chemother., 23, 54, 10.1128/AAC.23.1.54
Rasko, 2008, The pangenome structure of Escherichia coli: comparative genomic analysis of E. coli commensal and pathogenic isolates, J. Bacteriol., 190, 6881, 10.1128/JB.00619-08
Rees, 1987, Organization and regulation of the conjugation genes of IncI1 plasmid ColIb-P9, Plasmid, 18, 223, 10.1016/0147-619X(87)90065-5
Rodriguez-Siek, 2005, Characterizing the APEC pathotype, Vet. Res., 36, 241, 10.1051/vetres:2004057
Sampei, 2010, Complete genome sequence of the incompatibility group I1 plasmid R64, Plasmid, 64, 92, 10.1016/j.plasmid.2010.05.005
Sedgwick, 1989, Mutagenic DNA repair genes on plasmids from the ‘pre-antibiotic era’, Mol. Gen. Genet., 218, 323, 10.1007/BF00331285
Smet, 2010, Complete nucleotide sequence of CTX-M-15-plasmids from clinical Escherichia coli isolates: insertional events of transposons and insertion sequences, PLoS ONE, 5, e11202, 10.1371/journal.pone.0011202
Tamura, 2007, MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0, Mol. Biol. Evol., 24, 1596, 10.1093/molbev/msm092
Tato, 2007, Complex clonal and plasmid epidemiology in the first outbreak of Enterobacteriaceae infection involving VIM-1 metallo-beta-lactamase in Spain: toward endemicity?, Clin. Infect. Dis., 45, 1171, 10.1086/522288
Welch, 2007, Multiple antimicrobial resistance in plague: an emerging public health risk, PLoS ONE, 2, e309, 10.1371/journal.pone.0000309
Woodford, 2009, Complete nucleotide sequences of plasmids pEK204, pEK499, and pEK516, encoding CTX-M enzymes in three major Escherichia coli lineages from the United Kingdom, all belonging to the international O25:H4-ST131 clone, Antimicrob. Agents Chemother., 53, 4472, 10.1128/AAC.00688-09
Wu, 2010, Prevalence and characterization of plasmids carrying sulfonamide resistance genes among Escherichia coli from pigs, pig carcasses and human, Acta Vet. Scand., 52, 47, 10.1186/1751-0147-52-47
Yoshida, 1999, Twelve pil genes are required for biogenesis of the R64 thin pilus, J. Bacteriol., 181, 2038, 10.1128/JB.181.7.2038-2043.1999